Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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Global Symmetry: Dihedral - D2  (3D View)
Global Stoichiometry: Hetero 8-mer - A4B4 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 288722.03 
• Atom Count: 18234 
• Residue Count: 2556 
• Unique protein chains: 2

5X06

DNA replication regulation protein

• DOI: 10.2210/pdb5X06/pdb

• Classification: REPLICATION
• Organism(s): Escherichia coli O157:H7
• Expression System: Escherichia coli


• Deposited: 2017-01-20 Released: 2018-01-24 
• Deposition Author(s): Kim, J., Cho, Y.
• Funding Organization(s): National Research Foundation of Korea funded by the Korea Government 

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.237 Å
• R-Value Free: 0.265 
• R-Value Work: 0.226 

Literature

Replication regulation protein

Kim, J., Cho, Y.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
DNA polymerase III subunit beta	A, B, C, D	386	Escherichia coli O157:H7	Mutation(s): 0  Gene Names: dnaN
Find proteins for P0A990 (Escherichia coli O157:H7) Go to UniProtKB:  P0A990

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
DnaA regulatory inactivator Hda	E, F, G, H	253	Escherichia coli O157:H7	Mutation(s): 0  Gene Names: hda
Find proteins for P69933 (Escherichia coli O157:H7) Go to UniProtKB:  P69933

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
ADP	E, F, G, H	ADENOSINE-5'-DIPHOSPHATE C10 H15 N5 O10 P2 XTWYTFMLZFPYCI-KQYNXXCUSA-N
GOL	C, D, E, G	GLYCEROL GLYCERIN; PROPANE-1,2,3-TRIOL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
MG	E, F, G, H	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.237 Å
• R-Value Free: 0.265 
• R-Value Work: 0.226 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length (Å)	Angle (°)
a = 102.112	α = 90.00
b = 149.542	β = 90.00
c = 200.780	γ = 90.00

Software Package:

Software Name	Purpose
PHENIX	phasing
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History & Funding Information

Deposition Data

• Deposited Date: 2017-01-20 
• Released Date: 2018-01-24 
• Deposition Author(s): Kim, J., Cho, Y.

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Funding Organization	Location	Grant Number
National Research Foundation of Korea funded by the Korea Government	Korea, Republic Of	NRF-2015R1A2A1A05001694
National Research Foundation of Korea funded by the Korea Government	Korea, Republic Of	2012054226
National Research Foundation of Korea funded by the Korea Government	Korea, Republic Of	20120008833

Revision History 

• Version 1.0: 2018-01-24
  Type: Initial release